organic compounds
Ethyl 2-(5-fluoro-3-methylsulfinyl-1-benzofuran-2-yl)acetate
aDepartment of Chemistry, Dongeui University, San 24 Kaya-dong Busanjin-gu, Busan 614-714, Republic of Korea, and bDepartment of Chemistry, Pukyong National University, 599-1 Daeyeon 3-dong, Nam-gu, Busan 608-737, Republic of Korea
*Correspondence e-mail: uklee@pknu.ac.kr
In the title compound, C13H13FO4S, the O atom and the methyl group of the methylsulfinyl substituent lie on opposite sides of the plane through the benzofuran fragment. The exhibits four intermolecular non-classical C—H⋯O hydrogen bonds. In addition, the contains aromatic π–π interactions between the furan and benzene rings of adjacent molecules [centroid–centroid distance = 3.743 (2) Å], and two intermolecular C—H⋯π interactions.
Related literature
For the crystal structures of similar ethyl 2-(5-halo-3-methylsulfinyl-1-benzofuran-2-yl)acetate derivatives. see: Choi et al. (2007a,b,c). For the pharmacological activity of benzofuran compounds, see: Howlett et al. (1999); Twyman & Allsop (1999).
Experimental
Crystal data
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Data collection
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Refinement
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Data collection: SMART (Bruker, 2001); cell SAINT (Bruker, 2001); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: ORTEP-3 (Farrugia, 1997) and DIAMOND (Brandenburg, 1998); software used to prepare material for publication: SHELXL97.
Supporting information
10.1107/S1600536809025938/ez2175sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536809025938/ez2175Isup2.hkl
77% 3-chloroperoxybenzoic acid (247 mg, 1.1 mmol) was added in small portions to a stirred solution of ethyl 2-(5-fluoro-3-methylsulfanyl-1-benzofuran-2-yl)acetate (268 mg, 1.0 mmol) in dichloromethane (30 ml) at 273 K. After being stirred for 4 h at room temperature, the mixture was washed with saturated sodium bicarbonate solution and the organic layer was separated, dried over magnesium sulfate, filtered and concentrated in vacuum. The residue was purified by
(hexane-ethyl acetate,1:2 v/v) to afford the title compound as a colorless solid [yield 79%, m.p. 401-402 K; Rf = 0.43 (hexane-ethyl acetate, 1;2 v/v )]. Single crystals suitable for X-ray diffraction were prepared by evaporation of a solution of the title compound in acetone at room temperature.All H atoms were geometrically positioned and refined using a riding model, with C-H = 0.93 Å for the aryl, 0.97 Å for the methylene, and 0.96 Å for the methyl H atoms. Uiso(H) = 1.2Ueq(C) for the aryl and methylene H atoms, and 1.5Ueq(C) for methyl H atoms.
Data collection: SMART (Bruker, 2001); cell
SAINT (Bruker, 2001); data reduction: SAINT (Bruker, 2001); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: ORTEP-3 (Farrugia, 1997) and DIAMOND (Brandenburg, 1998); software used to prepare material for publication: SHELXL97 (Sheldrick, 2008).Fig. 1. The molecular structure of the title compound with the atom numbering scheme. Displacement ellipsoids are drawn at the 50% probability level. H atoms are presented as a small cycles of arbitrary radius. | |
Fig. 2. The C–H···O interactions (dotted lines) in the title compound. [Symmetry code: (i) - x + 1, - y + 1, - z + 1; (ii) - x + 1, - y + 1, - z + 2; (iii) - x + 2, - y + 1, - z + 1; (iv) - x + 2, - y + 1, - z + 2.] | |
Fig. 3. The π–π and C–H···π interactions (dotted lines) in the title compound. Cg denotes the ring centroids. [Symmetry code: (v) x, 1 + y, z; (vi) 1 - x, 1 - y, 2 - z; (vii) 1 - x, 2 - y, 2 - z; (viii) x, - 1 + y, z.] |
C13H13FO4S | Z = 2 |
Mr = 284.29 | F(000) = 296 |
Triclinic, P1 | Dx = 1.439 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 7.8821 (5) Å | Cell parameters from 4105 reflections |
b = 9.0922 (5) Å | θ = 2.5–27.5° |
c = 10.4354 (6) Å | µ = 0.27 mm−1 |
α = 73.682 (1)° | T = 273 K |
β = 79.155 (1)° | Block, colourless |
γ = 66.622 (1)° | 0.40 × 0.40 × 0.10 mm |
V = 656.31 (7) Å3 |
Bruker SMART CCD diffractometer | 2512 reflections with I > 2σ(I) |
Radiation source: fine-focus sealed tube | Rint = 0.063 |
Graphite monochromator | θmax = 27.0°, θmin = 2.0° |
Detector resolution: 10.0 pixels mm-1 | h = −10→10 |
ϕ and ω scans | k = −11→11 |
5673 measured reflections | l = −13→13 |
2805 independent reflections |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.036 | Hydrogen site location: difference Fourier map |
wR(F2) = 0.101 | H-atom parameters constrained |
S = 1.04 | w = 1/[σ2(Fo2) + (0.0465P)2 + 0.2336P] where P = (Fo2 + 2Fc2)/3 |
2805 reflections | (Δ/σ)max < 0.001 |
173 parameters | Δρmax = 0.40 e Å−3 |
0 restraints | Δρmin = −0.35 e Å−3 |
C13H13FO4S | γ = 66.622 (1)° |
Mr = 284.29 | V = 656.31 (7) Å3 |
Triclinic, P1 | Z = 2 |
a = 7.8821 (5) Å | Mo Kα radiation |
b = 9.0922 (5) Å | µ = 0.27 mm−1 |
c = 10.4354 (6) Å | T = 273 K |
α = 73.682 (1)° | 0.40 × 0.40 × 0.10 mm |
β = 79.155 (1)° |
Bruker SMART CCD diffractometer | 2512 reflections with I > 2σ(I) |
5673 measured reflections | Rint = 0.063 |
2805 independent reflections |
R[F2 > 2σ(F2)] = 0.036 | 0 restraints |
wR(F2) = 0.101 | H-atom parameters constrained |
S = 1.04 | Δρmax = 0.40 e Å−3 |
2805 reflections | Δρmin = −0.35 e Å−3 |
173 parameters |
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds involving l.s. planes. |
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > 2sigma(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger. |
x | y | z | Uiso*/Ueq | ||
S | 0.72668 (5) | 0.63168 (5) | 0.54574 (3) | 0.02919 (13) | |
F | 0.32177 (16) | 0.21796 (16) | 0.88301 (12) | 0.0529 (3) | |
O1 | 0.84077 (14) | 0.45046 (13) | 0.92200 (9) | 0.0247 (2) | |
O2 | 1.01504 (16) | 0.88467 (14) | 0.73052 (13) | 0.0368 (3) | |
O3 | 0.73837 (17) | 0.89429 (16) | 0.69571 (14) | 0.0428 (3) | |
O4 | 0.74634 (18) | 0.50040 (17) | 0.47717 (11) | 0.0422 (3) | |
C7 | 0.7124 (2) | 0.38103 (18) | 0.92490 (14) | 0.0246 (3) | |
C1 | 0.7324 (2) | 0.53985 (18) | 0.71812 (13) | 0.0235 (3) | |
C2 | 0.6385 (2) | 0.43348 (18) | 0.80110 (14) | 0.0236 (3) | |
C3 | 0.5036 (2) | 0.3785 (2) | 0.78410 (16) | 0.0296 (3) | |
H3 | 0.4504 | 0.4109 | 0.7035 | 0.036* | |
C4 | 0.4545 (2) | 0.2735 (2) | 0.89391 (18) | 0.0342 (4) | |
C5 | 0.5303 (2) | 0.2183 (2) | 1.01700 (17) | 0.0350 (4) | |
H5 | 0.4925 | 0.1450 | 1.0866 | 0.042* | |
C6 | 0.6629 (2) | 0.2741 (2) | 1.03413 (15) | 0.0301 (3) | |
H6 | 0.7157 | 0.2412 | 1.1149 | 0.036* | |
C8 | 0.8506 (2) | 0.54532 (18) | 0.79478 (13) | 0.0228 (3) | |
C9 | 0.9836 (2) | 0.63165 (18) | 0.76654 (14) | 0.0254 (3) | |
H9A | 1.0746 | 0.5942 | 0.6946 | 0.030* | |
H9B | 1.0489 | 0.6012 | 0.8456 | 0.030* | |
C10 | 0.8940 (2) | 0.81678 (19) | 0.72758 (14) | 0.0268 (3) | |
C11 | 0.9500 (3) | 1.0649 (2) | 0.6923 (2) | 0.0499 (5) | |
H11A | 0.8265 | 1.1120 | 0.7346 | 0.060* | |
H11B | 0.9456 | 1.1029 | 0.5959 | 0.060* | |
C12 | 1.0827 (3) | 1.1155 (2) | 0.7373 (2) | 0.0458 (4) | |
H12A | 1.2045 | 1.0677 | 0.6952 | 0.055* | |
H12B | 1.0850 | 1.0781 | 0.8329 | 0.055* | |
H12C | 1.0441 | 1.2333 | 0.7130 | 0.055* | |
C13 | 0.4872 (2) | 0.7641 (2) | 0.54508 (17) | 0.0385 (4) | |
H13A | 0.4622 | 0.8305 | 0.4563 | 0.058* | |
H13B | 0.4603 | 0.8341 | 0.6059 | 0.058* | |
H13C | 0.4108 | 0.6988 | 0.5727 | 0.058* |
U11 | U22 | U33 | U12 | U13 | U23 | |
S | 0.0300 (2) | 0.0380 (3) | 0.01935 (19) | −0.01155 (17) | −0.00708 (14) | −0.00428 (15) |
F | 0.0482 (6) | 0.0562 (8) | 0.0708 (8) | −0.0359 (6) | −0.0137 (6) | −0.0093 (6) |
O1 | 0.0298 (5) | 0.0263 (5) | 0.0213 (5) | −0.0122 (4) | −0.0090 (4) | −0.0032 (4) |
O2 | 0.0328 (6) | 0.0229 (6) | 0.0573 (7) | −0.0104 (5) | −0.0141 (5) | −0.0059 (5) |
O3 | 0.0347 (6) | 0.0308 (7) | 0.0608 (8) | −0.0108 (5) | −0.0202 (6) | 0.0016 (6) |
O4 | 0.0430 (7) | 0.0561 (9) | 0.0291 (6) | −0.0093 (6) | −0.0085 (5) | −0.0218 (5) |
C7 | 0.0259 (7) | 0.0238 (7) | 0.0261 (7) | −0.0083 (6) | −0.0063 (5) | −0.0073 (5) |
C1 | 0.0262 (7) | 0.0247 (7) | 0.0208 (6) | −0.0073 (6) | −0.0067 (5) | −0.0065 (5) |
C2 | 0.0241 (7) | 0.0229 (7) | 0.0245 (7) | −0.0057 (6) | −0.0058 (5) | −0.0082 (5) |
C3 | 0.0274 (7) | 0.0308 (8) | 0.0346 (8) | −0.0092 (6) | −0.0089 (6) | −0.0118 (6) |
C4 | 0.0297 (8) | 0.0324 (9) | 0.0480 (9) | −0.0156 (7) | −0.0057 (7) | −0.0126 (7) |
C5 | 0.0360 (9) | 0.0291 (8) | 0.0397 (9) | −0.0154 (7) | −0.0015 (7) | −0.0035 (7) |
C6 | 0.0349 (8) | 0.0271 (8) | 0.0275 (7) | −0.0114 (7) | −0.0063 (6) | −0.0024 (6) |
C8 | 0.0259 (7) | 0.0219 (7) | 0.0209 (6) | −0.0072 (6) | −0.0056 (5) | −0.0050 (5) |
C9 | 0.0248 (7) | 0.0252 (8) | 0.0275 (7) | −0.0086 (6) | −0.0077 (5) | −0.0052 (5) |
C10 | 0.0285 (7) | 0.0274 (8) | 0.0258 (7) | −0.0112 (6) | −0.0058 (6) | −0.0043 (6) |
C11 | 0.0485 (11) | 0.0228 (9) | 0.0790 (14) | −0.0104 (8) | −0.0232 (10) | −0.0047 (9) |
C12 | 0.0414 (10) | 0.0269 (9) | 0.0701 (13) | −0.0142 (8) | −0.0037 (9) | −0.0109 (8) |
C13 | 0.0342 (8) | 0.0366 (10) | 0.0365 (9) | −0.0027 (7) | −0.0147 (7) | −0.0031 (7) |
S—O4 | 1.5007 (13) | C5—C6 | 1.387 (2) |
S—C1 | 1.7583 (14) | C5—H5 | 0.9300 |
S—C13 | 1.7914 (18) | C6—H6 | 0.9300 |
F—C4 | 1.3633 (17) | C8—C9 | 1.4859 (19) |
O1—C8 | 1.3723 (17) | C9—C10 | 1.509 (2) |
O1—C7 | 1.3813 (16) | C9—H9A | 0.9700 |
O2—C10 | 1.3343 (17) | C9—H9B | 0.9700 |
O2—C11 | 1.466 (2) | C11—C12 | 1.488 (3) |
O3—C10 | 1.2035 (19) | C11—H11A | 0.9700 |
C7—C6 | 1.381 (2) | C11—H11B | 0.9700 |
C7—C2 | 1.3972 (19) | C12—H12A | 0.9600 |
C1—C8 | 1.3603 (19) | C12—H12B | 0.9600 |
C1—C2 | 1.446 (2) | C12—H12C | 0.9600 |
C2—C3 | 1.3984 (19) | C13—H13A | 0.9600 |
C3—C4 | 1.373 (2) | C13—H13B | 0.9600 |
C3—H3 | 0.9300 | C13—H13C | 0.9600 |
C4—C5 | 1.396 (2) | ||
O4—S—C1 | 106.41 (7) | O1—C8—C9 | 116.26 (11) |
O4—S—C13 | 106.04 (8) | C8—C9—C10 | 113.99 (12) |
C1—S—C13 | 98.86 (8) | C8—C9—H9A | 108.8 |
C8—O1—C7 | 106.33 (10) | C10—C9—H9A | 108.8 |
C10—O2—C11 | 116.58 (13) | C8—C9—H9B | 108.8 |
C6—C7—O1 | 125.26 (12) | C10—C9—H9B | 108.8 |
C6—C7—C2 | 124.13 (13) | H9A—C9—H9B | 107.6 |
O1—C7—C2 | 110.62 (12) | O3—C10—O2 | 123.99 (15) |
C8—C1—C2 | 107.22 (12) | O3—C10—C9 | 126.12 (13) |
C8—C1—S | 122.68 (11) | O2—C10—C9 | 109.88 (12) |
C2—C1—S | 129.73 (10) | O2—C11—C12 | 107.55 (15) |
C7—C2—C3 | 119.44 (13) | O2—C11—H11A | 110.2 |
C7—C2—C1 | 104.72 (12) | C12—C11—H11A | 110.2 |
C3—C2—C1 | 135.84 (13) | O2—C11—H11B | 110.2 |
C4—C3—C2 | 115.78 (14) | C12—C11—H11B | 110.2 |
C4—C3—H3 | 122.1 | H11A—C11—H11B | 108.5 |
C2—C3—H3 | 122.1 | C11—C12—H12A | 109.5 |
F—C4—C3 | 118.07 (14) | C11—C12—H12B | 109.5 |
F—C4—C5 | 116.90 (15) | H12A—C12—H12B | 109.5 |
C3—C4—C5 | 125.04 (14) | C11—C12—H12C | 109.5 |
C6—C5—C4 | 119.12 (15) | H12A—C12—H12C | 109.5 |
C6—C5—H5 | 120.4 | H12B—C12—H12C | 109.5 |
C4—C5—H5 | 120.4 | S—C13—H13A | 109.5 |
C7—C6—C5 | 116.48 (14) | S—C13—H13B | 109.5 |
C7—C6—H6 | 121.8 | H13A—C13—H13B | 109.5 |
C5—C6—H6 | 121.8 | S—C13—H13C | 109.5 |
C1—C8—O1 | 111.11 (12) | H13A—C13—H13C | 109.5 |
C1—C8—C9 | 132.64 (13) | H13B—C13—H13C | 109.5 |
C8—O1—C7—C6 | 178.81 (15) | F—C4—C5—C6 | −178.60 (15) |
C8—O1—C7—C2 | −1.02 (16) | C3—C4—C5—C6 | 1.5 (3) |
O4—S—C1—C8 | 127.12 (13) | O1—C7—C6—C5 | 179.74 (15) |
C13—S—C1—C8 | −123.16 (14) | C2—C7—C6—C5 | −0.4 (2) |
O4—S—C1—C2 | −45.00 (15) | C4—C5—C6—C7 | −0.8 (2) |
C13—S—C1—C2 | 64.72 (15) | C2—C1—C8—O1 | −0.08 (17) |
C6—C7—C2—C3 | 1.0 (2) | S—C1—C8—O1 | −173.75 (10) |
O1—C7—C2—C3 | −179.12 (13) | C2—C1—C8—C9 | 179.69 (15) |
C6—C7—C2—C1 | −178.88 (14) | S—C1—C8—C9 | 6.0 (2) |
O1—C7—C2—C1 | 0.96 (16) | C7—O1—C8—C1 | 0.67 (16) |
C8—C1—C2—C7 | −0.53 (16) | C7—O1—C8—C9 | −179.15 (12) |
S—C1—C2—C7 | 172.54 (12) | C1—C8—C9—C10 | 61.4 (2) |
C8—C1—C2—C3 | 179.57 (17) | O1—C8—C9—C10 | −118.84 (14) |
S—C1—C2—C3 | −7.4 (3) | C11—O2—C10—O3 | 0.1 (2) |
C7—C2—C3—C4 | −0.4 (2) | C11—O2—C10—C9 | 178.79 (15) |
C1—C2—C3—C4 | 179.54 (16) | C8—C9—C10—O3 | −13.8 (2) |
C2—C3—C4—F | 179.21 (14) | C8—C9—C10—O2 | 167.56 (12) |
C2—C3—C4—C5 | −0.9 (3) | C10—O2—C11—C12 | 164.80 (15) |
D—H···A | D—H | H···A | D···A | D—H···A |
C3—H3···O4i | 0.93 | 2.42 | 3.3374 (19) | 168 |
C5—H5···O3ii | 0.93 | 2.67 | 3.482 (2) | 147 |
C9—H9A···O4iii | 0.97 | 2.21 | 3.177 (2) | 172 |
C9—H9B···O1iv | 0.97 | 2.59 | 3.542 (2) | 169 |
C11—H11A···Cg2v | 0.97 | 2.92 | 3.773 (2) | 148 |
C12—H12C···Cg1v | 0.97 | 2.81 | 3.502 (2) | 129 |
Symmetry codes: (i) −x+1, −y+1, −z+1; (ii) −x+1, −y+1, −z+2; (iii) −x+2, −y+1, −z+1; (iv) −x+2, −y+1, −z+2; (v) x, y+1, z. |
Experimental details
Crystal data | |
Chemical formula | C13H13FO4S |
Mr | 284.29 |
Crystal system, space group | Triclinic, P1 |
Temperature (K) | 273 |
a, b, c (Å) | 7.8821 (5), 9.0922 (5), 10.4354 (6) |
α, β, γ (°) | 73.682 (1), 79.155 (1), 66.622 (1) |
V (Å3) | 656.31 (7) |
Z | 2 |
Radiation type | Mo Kα |
µ (mm−1) | 0.27 |
Crystal size (mm) | 0.40 × 0.40 × 0.10 |
Data collection | |
Diffractometer | Bruker SMART CCD diffractometer |
Absorption correction | – |
No. of measured, independent and observed [I > 2σ(I)] reflections | 5673, 2805, 2512 |
Rint | 0.063 |
(sin θ/λ)max (Å−1) | 0.639 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.036, 0.101, 1.04 |
No. of reflections | 2805 |
No. of parameters | 173 |
H-atom treatment | H-atom parameters constrained |
Δρmax, Δρmin (e Å−3) | 0.40, −0.35 |
Computer programs: SMART (Bruker, 2001), SAINT (Bruker, 2001), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), ORTEP-3 (Farrugia, 1997) and DIAMOND (Brandenburg, 1998).
D—H···A | D—H | H···A | D···A | D—H···A |
C3—H3···O4i | 0.93 | 2.42 | 3.3374 (19) | 168.2 |
C5—H5···O3ii | 0.93 | 2.67 | 3.482 (2) | 147.1 |
C9—H9A···O4iii | 0.97 | 2.21 | 3.177 (2) | 172.2 |
C9—H9B···O1iv | 0.97 | 2.59 | 3.542 (2) | 168.7 |
C11—H11A···Cg2v | 0.97 | 2.92 | 3.773 (2) | 147.8 |
C12—H12C···Cg1v | 0.97 | 2.81 | 3.502 (2) | 129.4 |
Symmetry codes: (i) −x+1, −y+1, −z+1; (ii) −x+1, −y+1, −z+2; (iii) −x+2, −y+1, −z+1; (iv) −x+2, −y+1, −z+2; (v) x, y+1, z. |
References
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Molecules containing the benzofuran ring system have attracted considerable interest in view of their biological and pharmacological properties (Howlett et al., 1999; Twyman & Allsop, 1999). This work is related to our communications on the synthesis and structures of ethyl 2-(5-halo-3-methylsulfinyl-1-benzofuran-2-yl)acetate analogues, viz. ethyl 2-(5-chloro-3-methylsulfinyl-1-benzofuran-2-yl)acetate (Choi et al., 2007a), ethyl 2-(5-bromo-3-methylsulfinyl-1-benzofuran-2-yl) acetate (Choi et al., 2007b), and ethyl 2-(5-iodo-3-methylsulfinyl-1-benzofuran-2-yl)acetate (Choi et al., 2007c). Here we report the crystal structure of the title compound (Fig. 1).
The benzofuran unit is essentially planar, with a mean deviation of 0.010 (1) Å from the least-squares plane defined by the nine constituent atoms. The crystal packing (Fig. 2) exhibits weak intermolecular C–H···O non-classical hydrogen bonds; the first between an H atom of the benzofuran ring and the S═O unit, with a C3–H3···O4i, the second between an H atom of benzofuran ring and the C═O unit, with a C5-H5···O3ii, the third between an H atom of the methylene group bonded to carboxylate C atom and the S═O unit, with a C9–H9A···O4iii, the fourth between an H atom of the methylene group bonded to carboxylate C atom and the furan O atom, with a C9–H9B···O1iv, respectively (Table 1 and Fig. 2). Additionally, the crystal packing (Fig. 3) contains aromatic π–π interactions between the furan and the benzene rings of the neighbouring molecules, with a Cg1···Cg2vi distance of 3.743 (2) Å (Cg1 and Cg2 are the centroids of the C1/C2/C7/O1/C8 furan ring and the C2-C7 benzene ring, respectively). The molecular packing is further stabilized by two intermolecular C–H···π interactions; the first between the methylene H atom of ethoxy group and the benzene ring of a neighbouring molecule (C11–H11A···Cg2v), the second between the methyl H atom of ethoxy group and the furan ring of a neighbouring molecule (C12–H12C···Cg1v), respectively (Table 1 and Fig. 3).